Crystal structure of the ribonuclease P protein Ph1877p from hyperthermophilic archaeon Pyrococcus horikoshii OT3

Biochemical and Biophysical Research Communications

Volumn 319, Issue 3, 2004, Pages 787-794

  Takagi, Hisanori ^a   Watanabe, Mitsutoshi ^a   Kakuta, Yoshimitsu ^a   Kamachi, Ritsu ^a   Numata, Tomoyuki ^a   Tanaka, Isao ^b   Kimura, Makoto ^a  

^a KYUSHU UNIVERSITY   (Japan)

^b HOKKAIDO UNIVERSITY   (Japan)

Author keywords

Archaea; Crystal structure; Pre tRNA; Pyrococcus horikoshii; Ribonuclease P; RNA binding site; Site directed mutagenesis

Indexed keywords

BACTERIAL PROTEIN; CYTOSINE DEAMINASE; ISOPROTEIN; PROTEIN PH1877P; RIBONUCLEASE P; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; CRYSTAL STRUCTURE; ELECTRIC POTENTIAL; ENZYME ACTIVITY; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN STRUCTURE; PYROCOCCUS; PYROCOCCUS HORIKOSHII; SEQUENCE HOMOLOGY; SITE DIRECTED MUTAGENESIS;

AMINO ACID SEQUENCE; ANIMALS; ARCHAEAL PROTEINS; CRYSTALLOGRAPHY, X-RAY; HUMANS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; PYROCOCCUS HORIKOSHII; RIBONUCLEASE P; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID;

ARCHAEA; ESCHERICHIA COLI; EUKARYOTA; PYROCOCCUS; PYROCOCCUS HORIKOSHII;

EID: 2942627587     PISSN: 0006291X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbrc.2004.05.055     Document Type: Article

References (28)

1. Guerrier-Takada C., Gardiner K., Marsh T., Pace N., Altman S. The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell. 35:1983;849-857
2. Jarrous N. Human ribonuclease P: subunits, function, and intranuclear localization. RNA. 8:2002;1-7
3. Pace N.R., Brown J.W. Evolutionary perspective on the structure and function of ribonuclease P, a ribozyme. J. Bacteriol. 177:1995;1919-1928
4. Frank D.N., Pace N.R. Ribonuclease P: unity and diversity in a tRNA processing ribozyme. Annu. Rev. Biochem. 67:1998;153-180
5. Bartkiewicz M., Gold H., Altman S. Identification and characterization of an RNA molecule that copurifies with RNase P activity from HeLa cells. Genes Dev. 3:1989;488-499
6. Yuan Y., Altman S. Substrate recognition by human RNase P: identification of small, model substrates for the enzyme. EMBO J. 14:1995;159-168
7. Xiao S., Houser-Scott F., Engelke D.R. Eukaryotic ribonuclease P: increased complexity to cope with the nuclear pre-tRNA pathway. J. Cell Physiol. 187:2001;11-20
8. Darr S.C., Pace B., Pace N.R. Characterization of ribonuclease P from the archaebacterium Sulfolobus solfataricus. J. Biol. Chem. 265:1990;12927-12932
9. Nieuwlandt D.T., Haas E.S., Daniels C.J. The RNA component of RNase P from the archaebacterium Haloferax volcanii. J. Biol. Chem. 266:1991;5689-5695
10. Andrews A.J., Hall T.A., Brown J.W. Characterization of RNase P holoenzymes from Methanococcus jannaschii and Methanothermobacter thermoautotrophicus. Biol. Chem. 382:2001;1171-1177
11. Pannucci J.A., Haas E.S., Hall T.A., Harris J.K., Brown J.W. RNase P RNAs from some Archaea are catalytically active. Proc. Natl. Acad. Sci. USA. 96:1999;7803-7808
12. Kawarabayashi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T., Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Kikuchi H. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3. DNA Res. 5:1998;55-76
13. Kouzuma Y., Mizoguchi M., Takagi H., Fukuhara H., Tsukamoto M., Numata T., Kimura M. Reconstitution of archaeal ribonuclease P from RNA and four protein components. Biochem. Biophys. Res. Commun. 306:2003;666-673
14. Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276:1997;307-326
15. Terwilliger T.C., Berenddzen J. Automated MAD and MIR structure solution. Acta Crystallogr. D. 55:1999;849-861
16. Brunger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., Jiang J.S., Kuszewski J., Nilges M., Pannu N.S., Read R.J., Rice L.M., Simonson T., Warren G.L. Crystallography and NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D. 54:1998;905-921
17. Reardon D., Farber G.K. The structure and evolution of alpha/beta barrel proteins. FASEB J. 9:1995;497-502
18. Stams T., Niranjanakumari S., Fierke C.A., Christianson D.W. Ribonuclease P protein structure: evolutionary origins in the translational apparatus. Science. 280:1998;752-755
19. Spitzfaden C., Nicholson N., Jones J.J., Guth S., Lehr R., Prescott C.D. The structure of ribonuclease P protein from Staphylococcus aureus reveals a unique binding site for single-stranded RNA. J. Mol. Biol. 295:2000;105-115
20. Kazanstev A.V., Krivenko A.A., Harrington D.J., Carter R.J., Holbrook S.R., Adam P.D., Pace N.R. High-resolution structure of RNase P protein from Thermotoga maritime. Proc. Natl. Acad. Sci. USA. 100:2003;7497-7502
21. Ireton G., McDermott G., Black M.E., Stoddard B.L. The structure of Escherichia coli cytosine deaminase. J. Mol. Biol. 315:2002;687-697
22. Nishimura S. Structure, biosynthesis, and function of queuosine in transfer RNA. Prog. Nucleic Acid Res. Mol. Biol. 28:1983;49-73
23. Romier C., Reuter K., Suck D., Ficner R. Crystal structure of tRNA-guanine transglycosylase: RNA modification by base exchange. EMBO J. 15:1996;2850-2857
24. Xianjun W.X., Huang R.H. Chemical trapping and crystal structure of a catalytic tRNA guanine transglycosylase covalent intermediate. Nat. Struc. Biol. 10:2003;781-788
25. Brown J.W., Nolan J.M., Haas E.S., Rubio M.A., Major F., Pace N.R. Comparative analysis of ribonuclease P RNA using gene sequences from natural microbial populations reveals tertiary structural elements. Proc. Natl. Acad. Sci. USA. 93:1996;3001-3006
26. Abramovitz D.L., Pyle A.M. Remarkable morphological variability of a common RNA folding motif: the GNRA tetraloop-receptor interaction. J. Mol. Biol. 266:1997;493-506
27. Kabsch W., Sander C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers. 22:1983;2577-2637
28. Nicholls A., Sharp K., Honing B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins. 11:1991;281-296